357 results on '"Thomas Borsch"'
Search Results
2. A taxonomic backbone for the Plumbaginaceae (Caryophyllales)
- Author
-
Maryam Malekmohammadi, Konstantina Koutroumpa, Manuel B. Crespo, Gianniantonio Domina, Nadja Korotkova, Hossein Akhani, Sabine von Mering, Thomas Borsch, and Walter G. Berendsohn
- Subjects
Botany ,QK1-989 - Abstract
A taxonomic backbone of the Plumbaginaceae is presented and the current state of knowledge on phylogenetic relationships and taxon limits is reviewed as a basis for the accepted taxon concepts. In total, 4,476 scientific names and designations are treated of which 30 are not in the family Plumbaginaceae. The Plumbaginaceae are subdivided in three tribes with 26 genera and 1,179 accepted species. Two subgenera, 17 sections, two subsections and 187 infraspecific taxa are accepted. At the species and infraspecific level 2,782 synonyms were assigned to accepted taxa, whereas 194 names were excluded from the core checklist (i.e., unplaced taxa, infrageneric subdivisions with still uncertain application, names of verified uncertain application, invalid horticultural names, excluded names from other families, other excluded designations, and unresolved names). The EDIT Platform for Cybertaxonomy was utilized as the tool to compile and manage the names and further taxonomic data under explicit taxon concepts. Secundum references are given in case taxon concepts were taken from the literature, whereas this study serves as reference for newly circumscribed taxa. The family’s division into the tribes Aegialitideae, Limonieae, and Plumbagineae departs from earlier two-subfamily classifications, prompted by recent phylogenetic findings that challenge the subfamilial affinity of Aegialitis. The genus Acantholimon was extended to include Gladiolimon, as currently available phylogenetic and morphological data support this merger. In Limonium, all accepted species could be assigned to sections and subsections or the “Mediterranean lineage”, respectively, making use of the phylogenetic distribution of their morphological characters and states. A new combination and/or status is proposed for Dyerophytum socotranum, Limonium thymoides, Limonium × fraternum, Limonium × rossmaessleri, and Limonium sect. Jovibarba. Special attention is given to nomenclatural issues, particularly for Statice nomen ambiguum to resolve the names under accepted names. The use of artificial groupings like “aggregates”, “complexes” and “species groups” in alpha-taxonomic treatments is discussed. The taxonomic backbone will receive continued updates and through the Caryophyllales Taxonomic Expert Network, it contributes the treatment of the Plumbaginaceae for the World Flora Online.
- Published
- 2024
- Full Text
- View/download PDF
3. Generic concepts and species diversity within the Gynoxyoid clade (Senecioneae, Compositae)
- Author
-
Belen Escobari, Thomas Borsch, and Norbert Kilian
- Subjects
Botany ,QK1-989 - Abstract
The Gynoxyoid clade of the Senecioneae (Asteraceae) until now included the five genera Aequatorium, Gynoxys, Nordenstamia, Paracalia and Paragynoxys as diagnosed using selected morphological characters. In their pre-phylogenetic circumscription, the genera Aequatorium and Paragynoxys were considered to inhabit the northern Andes in contrast to Nordenstamia and Paracalia that occur in the central Andes. The most species-rich genus, Gynoxys, was believed to be distributed throughout the Andes. We use a recently established plastid phylogenomic framework that rendered Gynoxys paraphyletic to further evaluate the delimitation of genera in the Gynoxyoid clade. We examine the morphological variation of all members of the Gynoxyoid to identify characters potentially informative at genus level. This results in a matrix of eleven, mostly multistate characters, including those originally used to diagnose these genera. The ancestral character state inference displays a high level of homoplasy, but nevertheless supports the recognition of four genera. Aequatorium is characterised by white radiate capitula. Paracalia and Paragynoxys share white flowers and floral characteristics, such as flower opening and length of disc flowers lobes, as plesiomorphic states, but differ in habit (scandent shrubs vs. trees). Paracalia also retained white flowers, but its two species are characterised by the absence of outer phyllaries. The genera Gynoxys and Nordenstamia comprise species with yellow capitula which appear to be a derived feature in the Gynoxyoids. The genus Nordenstamia, with eight species, is synonymised under Gynoxys since molecular evidence shows its species nested within various parts of the Gynoxys subclade and the morphological variation of Nordenstamia falls well within that of Gynoxys. With the goal to assign all species to four genera (Aequatorium, Gynoxys, Paracalia and Paragynoxys), we assess the states for the eleven characters for all members of the Gynoxyoids and generate new ETS and ITS sequences for 171 specimens belonging to 49 species to further support their generic placement. We provide a taxonomic treatment for the four genera recognised here including amended diagnoses and morphological descriptions. Furthermore, a species-level taxonomic backbone is elaborated for all genera using electronic tools that list 158 currently accepted names and synonyms (209 names in total) with the respective protologue and type information, as well as notes on the current understanding of species limits. Eleven names are newly synonymised, two are lectotypified and eight are newly transferred to other genera.
- Published
- 2023
- Full Text
- View/download PDF
4. BarKeeper—a versatile web framework to assemble, analyse and manage DNA barcoding data and metadata
- Author
-
Sarah Wiechers, Lara Marie Kösters, Dietmar Quandt, Thomas Borsch, Susann Wicke, and Kai Frank Müller
- Subjects
DNA assembly ,DNA barcoding ,metadata ,phylogenetics ,reference database ,taxonomy ,Ecology ,QH540-549.5 ,Evolution ,QH359-425 - Abstract
Abstract DNA barcoding aids in rapidly identifying specimens in various contexts by comparing short stretches of DNA to a reference database. Barcoding initiatives generate large reference databases of carefully curated high‐quality sequences to maximize identification success. BarKeeper provides a flexible tool for barcoding initiatives and in the context of phylogenetic studies to foster shared work on large datasets of raw sequence and associated metadata. It is free, open‐source and available as a set of Docker containers for easy setup. After setting it up once, all project members can use it independently of their operating system or location. BarKeeper offers features to collect and manage data and metadata about specimens, taxa and DNA sequences from Sanger sequencing and high‐throughput sequencing (HTS) technologies. It provides excellent flexibility by not being restricted to specific markers or taxon groups. Users can view and edit records and associated metadata while the app assists them by trimming and assembling reads. It automatically checks the quality of generated barcodes with a taxonomy‐based tool and offers a wide range of options for data analysis. Extensive search features allow querying the database for specific groups of records and saving the search results in the user's profile or downloading them in various file formats. BarKeeper combines multiple tools to aid barcoding projects in every step, from a reference taxa list to finished barcode sequences, thereby minimizing the number of laborious, potentially error‐prone manual steps and enabling efficient collaborative workflows.
- Published
- 2023
- Full Text
- View/download PDF
5. Taxonomy of Dianthus (Caryophyllaceae) – overall phylogenetic relationships and assessment of species diversity based on a first comprehensive checklist of the genus
- Author
-
Georgia Fassou, Nadja Korotkova, Anush Nersesyan, Marcus A. Koch, Panayotis Dimopoulos, and Thomas Borsch
- Subjects
Botany ,QK1-989 - Abstract
In this study, we present an overall phylogenetic framework for Dianthus using four plastid regions (matK-trnK-psbA, rpl32-trnL, trnQ-rps16) and nuclear ITS and a species-level checklist for the genus developed by using all available databases and the literature. The trees from the plastid dataset depict a clade of Dianthus that also includes Velezia and a few taxa of Petrorhagia. New combinations in Dianthus are provided for these species. The checklist of Dianthus in this new delimitation covers 1781 names, with 384 accepted species, 150 subspecies, 12 heterotypic varieties and two forms (not counting autonyms), 1050 synonyms, 22 hybrid names and 172 unresolved names, 3 names were excluded. Implications for the evolution of flower characters, life forms, biogeography, as well as sectional classification are discussed based on the phylogenetic framework.
- Published
- 2022
- Full Text
- View/download PDF
6. Contributions to the biodiversity of Vietnam – Results of VIETBIO inventory work and field training in Cuc Phuong National Park
- Author
-
Virginia Duwe, Lien Vu, Thomas von Rintelen, Eckhard von Raab-Straube, Stefan Schmidt, Sinh Nguyen, Thong Vu, Tu Do, Truong Luu, Vuong Truong, Vanessa Di Vincenzo, Olga Schmidt, Falko Glöckler, Regine Jahn, Robert Lücking, Katharina von Oheimb, Parm von Oheimb, Sandra Heinze, Nelida Abarca, Sarah Bollendorff, Thomas Borsch, Eliana Buenaventura, Huong Dang, Thuy Dinh, Hai Do, Sarah Ehlers, Jörg Freyhof, Sofía Hayden, Peter Hein, Tuan Hoang, Duc Hoang, Son Hoang, Harald Kürschner, Wolf-Henning Kusber, Han Le, Trang Le, Mattes Linde, Wolfram Mey, Hiep Nguyen, Man Nguyen, Minh Nguyen, Dat Nguyen, Tu Nguyen, Vu Nguyen, Michael Ohl, Gerald Parolly, Tan Pham, Phu Pham, Katharina Rabe, Bernhard Schurian, Oliver Skibbe, Anna Sulikowska-Drozd, Quang To, Tam Truong, Jonas Zimmermann, and Christoph Häuser
- Subjects
VIETBIO ,Vietnam ,biodiversity discovery ,species ,Biology (General) ,QH301-705.5 - Abstract
VIETBIO [Innovative approaches to biodiversity discovery and characterisation in Vietnam] is a bilateral German-Vietnamese research and capacity building project focusing on the development and transfer of new methods and technology towards an integrated biodiversity discovery and monitoring system for Vietnam. Dedicated field training and testing of innovative methodologies were undertaken in Cuc Phuong National Park as part and with support of the project, which led to the new biodiversity data and records made available in this article collection.VIETBIO is a collaboration between the Museum für Naturkunde Berlin – Leibniz Institute for Evolution and Biodiversity Science (MfN), the Botanic Garden and Botanical Museum, Freie Universität Berlin (BGBM) and the Vietnam National Museum of Nature (VNMN), the Institute of Ecology and Biological Resources (IEBR), the Southern Institute of Ecology (SIE), as well as the Institute of Tropical Biology (ITB); all Vietnamese institutions belong to the Vietnam Academy of Science and Technology (VAST).The article collection "VIETBIO" (https://doi.org/10.3897/bdj.coll.63) reports original results of recent biodiversity recording and survey work undertaken in Cuc Phuong National Park, northern Vietnam, under the framework of the VIETBIO project. The collection consist of this “main” cover paper – characterising the study area, the general project approaches and activities, while also giving an extensive overview on previous studies from this area – followed by individual papers for higher taxa as studied during the project. The main purpose is to make primary biodiversity records openly available, including several new and interesting findings for this biodiversity-rich conservation area. All individual data papers with their respective primary records are expected to provide useful baselines for further taxonomic, phylogenetic, ecological and conservation-related studies on the respective taxa and, thus, will be maintained as separate datasets, including separate GUIDs also for further updating.
- Published
- 2022
- Full Text
- View/download PDF
7. Software Choice and Sequencing Coverage Can Impact Plastid Genome Assembly–A Case Study in the Narrow Endemic Calligonum bakuense
- Author
-
Eka Giorgashvili, Katja Reichel, Calvinna Caswara, Vuqar Kerimov, Thomas Borsch, and Michael Gruenstaeudl
- Subjects
assembly software ,Calligonum ,genome assembly ,plastid genome ,phylogenetic position ,nucleotide differences ,Plant culture ,SB1-1110 - Abstract
Most plastid genome sequences are assembled from short-read whole-genome sequencing data, yet the impact that sequencing coverage and the choice of assembly software can have on the accuracy of the resulting assemblies is poorly understood. In this study, we test the impact of both factors on plastid genome assembly in the threatened and rare endemic shrub Calligonum bakuense. We aim to characterize the differences across plastid genome assemblies generated by different assembly software tools and levels of sequencing coverage and to determine if these differences are large enough to affect the phylogenetic position inferred for C. bakuense compared to congeners. Four assembly software tools (FastPlast, GetOrganelle, IOGA, and NOVOPlasty) and seven levels of sequencing coverage across the plastid genome (original sequencing depth, 2,000x, 1,000x, 500x, 250x, 100x, and 50x) are compared in our analyses. The resulting assemblies are evaluated with regard to reproducibility, contig number, gene complement, inverted repeat length, and computation time; the impact of sequence differences on phylogenetic reconstruction is assessed. Our results show that software choice can have a considerable impact on the accuracy and reproducibility of plastid genome assembly and that GetOrganelle produces the most consistent assemblies for C. bakuense. Moreover, we demonstrate that a sequencing coverage between 500x and 100x can reduce both the sequence variability across assembly contigs and computation time. When comparing the most reliable plastid genome assemblies of C. bakuense, a sequence difference in only three nucleotide positions is detected, which is less than the difference potentially introduced through software choice.
- Published
- 2022
- Full Text
- View/download PDF
8. Seeing the wood despite the trees: Exploring human disturbance impact on plant diversity, community structure, and standing biomass in fragmented high Andean forests
- Author
-
Mariasole Calbi, Francisco Fajardo‐Gutiérrez, Juan Manuel Posada, Robert Lücking, Grischa Brokamp, and Thomas Borsch
- Subjects
aboveground biomass ,biodiversity ,bosque altoandino ,Colombia ,cryptic forest degradation ,understory ,Ecology ,QH540-549.5 - Abstract
Abstract High Andean forests harbor a remarkably high biodiversity and play a key role in providing vital ecosystem services for neighboring cities and settlements. However, they are among the most fragmented and threatened ecosystems in the neotropics. To preserve their unique biodiversity, a deeper understanding of the effects of anthropogenic perturbations on them is urgently needed. Here, we characterized the plant communities of high Andean forest remnants in the hinterland of Bogotá in 32 0.04 ha plots. We assessed the woody vegetation and sampled the understory and epiphytic cover. We gathered data on compositional and structural parameters and compiled a broad array of variables related to anthropogenic disturbance, ranging from local to landscape‐wide metrics. We also assessed phylogenetic diversity and functional diversity. We employed nonmetric multidimensional scaling (NMDS) to select meaningful variables in a first step of the analysis. Then, we performed partial redundancy analysis (pRDA) and generalized linear models (GLMs) in order to test how selected environmental and anthropogenic variables are affecting the composition, diversity, and aboveground biomass of these forests. Identified woody vegetation and understory layer communities were characterized by differences in elevation, temperature, and relative humidity, but were also related to different levels of human influence. We found that the increase of human‐related disturbance resulted in less phylogenetic diversity and in the phylogenetic clustering of the woody vegetation and in lower aboveground biomass (AGB) values. As to the understory, disturbance was associated with a higher diversity, jointly with a higher phylogenetic dispersion. The most relevant disturbance predictors identified here were as follows: edge effect, proximity of cattle, minimum fragment age, and median patch size. Interestingly, AGB was efficiently predicted by the proportion of late successional species. We therefore recommend the use of AGB and abundance of late successional species as indicators of human disturbance on high Andean forests.
- Published
- 2021
- Full Text
- View/download PDF
9. A complete digitization of German herbaria is possible, sensible and should be started now
- Author
-
Thomas Borsch, Albert-Dieter Stevens, Eva Häffner, Anton Güntsch, Walter G. Berendsohn, Marc Appelhans, Christina Barilaro, Bánk Beszteri, Frank Blattner, Oliver Bossdorf, Helmut Dalitz, Stefan Dressler, Rhinaixa Duque-Thüs, Hans-Joachim Esser, Andreas Franzke, Dethardt Goetze, Michaela Grein, Uta Grünert, Frank Hellwig, Jörn Hentschel, Elvira Hörandl, Thomas Janßen, Norbert Jürgens, Gudrun Kadereit, Timm Karisch, Marcus Koch, Frank Müller, Jochen Müller, Dietrich Ober, Stefan Porembski, Peter Poschlod, Christian Printzen, Martin Röser, Peter Sack, Philipp Schlüter, Marco Schmidt, Martin Schnittler, Markus Scholler, Matthias Schultz, Elke Seeber, Josef Simmel, Michael Stiller, Mike Thiv, Holger Thüs, Natalia Tkach, Dagmar Triebel, Ursula Warnke, Tanja Weibulat, Karsten Wesche, Andrey Yurkov, and Georg Zizka
- Subjects
Herbaria ,Digitization ,Botanical Collections ,Res ,Science - Abstract
Plants, fungi and algae are important components of global biodiversity and are fundamental to all ecosystems. They are the basis for human well-being, providing food, materials and medicines. Specimens of all three groups of organisms are accommodated in herbaria, where they are commonly referred to as botanical specimens.The large number of specimens in herbaria provides an ample, permanent and continuously improving knowledge base on these organisms and an indispensable source for the analysis of the distribution of species in space and time critical for current and future research relating to global biodiversity. In order to make full use of this resource, a research infrastructure has to be built that grants comprehensive and free access to the information in herbaria and botanical collections in general. This can be achieved through digitization of the botanical objects and associated data.The botanical research community can count on a long-standing tradition of collaboration among institutions and individuals. It agreed on data standards and standard services even before the advent of computerization and information networking, an example being the Index Herbariorum as a global registry of herbaria helping towards the unique identification of specimens cited in the literature.In the spirit of this collaborative history, 51 representatives from 30 institutions advocate to start the digitization of botanical collections with the overall wall-to-wall digitization of the flat objects stored in German herbaria. Germany has 70 herbaria holding almost 23 million specimens according to a national survey carried out in 2019. 87% of these specimens are not yet digitized. Experiences from other countries like France, the Netherlands, Finland, the US and Australia show that herbaria can be comprehensively and cost-efficiently digitized in a relatively short time due to established workflows and protocols for the high-throughput digitization of flat objects.Most of the herbaria are part of a university (34), fewer belong to municipal museums (10) or state museums (8), six herbaria belong to institutions also supported by federal funds such as Leibniz institutes, and four belong to non-governmental organizations. A common data infrastructure must therefore integrate different kinds of institutions.Making full use of the data gained by digitization requires the set-up of a digital infrastructure for storage, archiving, content indexing and networking as well as standardized access for the scientific use of digital objects. A standards-based portfolio of technical components has already been developed and successfully tested by the Biodiversity Informatics Community over the last two decades, comprising among others access protocols, collection databases, portals, tools for semantic enrichment and annotation, international networking, storage and archiving in accordance with international standards. This was achieved through the funding by national and international programs and initiatives, which also paved the road for the German contribution to the Global Biodiversity Information Facility (GBIF).Herbaria constitute a large part of the German botanical collections that also comprise living collections in botanical gardens and seed banks, DNA- and tissue samples, specimens preserved in fluids or on microscope slides and more. Once the herbaria are digitized, these resources can be integrated, adding to the value of the overall research infrastructure. The community has agreed on tasks that are shared between the herbaria, as the German GBIF model already successfully demonstrates.We have compiled nine scientific use cases of immediate societal relevance for an integrated infrastructure of botanical collections. They address accelerated biodiversity discovery and research, biomonitoring and conservation planning, biodiversity modelling, the generation of trait information, automated image recognition by artificial intelligence, automated pathogen detection, contextualization by interlinking objects, enabling provenance research, as well as education, outreach and citizen science.We propose to start this initiative now in order to valorize German botanical collections as a vital part of a worldwide biodiversity data pool.
- Published
- 2020
- Full Text
- View/download PDF
10. Innovative Instrumente und Methoden der Zulassung.
- Author
-
Frank Sonnenberg and Thomas Borsch
- Published
- 2019
- Full Text
- View/download PDF
11. VS-Zulassung.
- Author
-
Frank Sonnenberg, Thomas Borsch, and Martina Rohde
- Published
- 2019
- Full Text
- View/download PDF
12. Lichen diversity in colombian caribbean dry forest remnants
- Author
-
Robert Lücking, Bibiana Moncada, María Cristina Martínez-Habibe, Beatriz E. Salgado-Negret, Marcela Celis, Oscar Rojas-Zamora, Gina M. Rodríguez-M., Grischa Brokamp, and Thomas Borsch
- Subjects
biodiversity ,Dry Tropical Forest ,conservation ,lichens ,Piojó ,Usiacurí ,Science ,Zoology ,QL1-991 ,Botany ,QK1-989 - Abstract
We present a first study of the diversity and community composition of lichens in seasonally dry tropical forest (DTF) remnants in the Atlántico department, Colombia. Lichens were sampled in two of the three protected areas of the department: Distrito de Manejo Integrado (DMI) Luriza and Reserva Forestal Protectora (RFP) El Palomar. The inventory revealed 61 species, including four new to science: Fissurina linoana Lücking, Moncada & G. Rodr. sp. nov., Graphis lurizana Lücking, Moncada & Celis sp. nov., G. mokanarum Lücking, Moncada & M.C. Martínez sp. nov., and Phaeographis galeanoae Lücking, Moncada & B. Salgado-N. sp. nov. Arthonia erupta and Coenogonium saepincola are new to South America, whereas thirteen species are recorded for Colombia for the first time. Further 37 species are new records for Atlántico, raising the total of species known from the department from 27 to 84. With 42 species at Luriza and 31 at El Palomar, species richness was comparable to that of other DTF sites in the Neotropics. Overlap in species composition between the two sites was remarkably low, with only twelve shared species (20 %), indicating a high level of heterogeneity. Biogeographical affinities lie with Central American DTF, which is in line with those of woody plants. These results underline the importance of the remaining fragments of DTF in Colombia in conserving partially unknown biodiversity and the necessity for their continuing conservation.
- Published
- 2019
- Full Text
- View/download PDF
13. The diversification of Caribbean Buxus in time and space: elevated speciation rates in lineages accumulating nickel but spread to other islands from Cuba in non obligate ultramafic species
- Author
-
Pedro A González Gutiérrez, Susy Fuentes-Bazan, Vanessa Di Vincenzo, Rosalina Berazaín-Iturralde, and Thomas Borsch
- Subjects
Plant Science - Abstract
Background and Aims The genus Buxus has high levels of endemism in the Caribbean flora with c. 50 taxa. In Cuba, 82% grow on ultramafic substrates and 59% are nickel (Ni)-accumulators or Ni-hyperaccumulators. Hence it is an ideal model group to study if this diversification could be related to the adaptation to ultramafic substrates and to the Ni-hyperaccumulation. Methods We generated a well-resolved molecular phylogeny, including nearly all of the Neotropical and Caribbean Buxus taxa. To obtain robust divergence times we tested for the effect of different calibration scenarios, and we reconstructed ancestral areas and ancestral character states. Phylogenetic trees were examined for trait-independent shifts in diversification rates and we used multi-state models to test for state-dependent speciation and extinction rates. Key Results We found a Caribbean Buxus clade with Mexican ancestors, encompassing three major subclades, which started to radiate during the middle Miocene (13.25 Mya). Other Caribbean islands and northern South America were reached from c. 3 Mya onwards. Conclusions An evolutionary scenario is evident in which Buxus plants able to grow on ultramafic substrates by exaptation became ultramafic substrate endemics and stepwise evolved from Ni tolerance over Ni-accumulation to Ni-hyperaccumulation, which has triggered species diversification of Buxus in Cuba. Storms could have contributed to Cuba acting as a species pump and to reach other Caribbean islands and northern South America.
- Published
- 2023
- Full Text
- View/download PDF
14. Nested singletons in molecular trees: Utility of adding morphological and geographical data from digitized herbarium specimens to test taxon concepts at species level in the case of Casearia (Salicaceae)
- Author
-
Astrid de Mestier, Robert Lücking, Jorge Gutierrez, Grischa Brokamp, Marcela Celis, and Thomas Borsch
- Subjects
PCA ,species delimitation ,Ecology ,500 Naturwissenschaften und Mathematik::580 Pflanzen (Botanik)::580 Pflanzen (Botanik) ,Ecology, Evolution, Behavior and Systematics ,Ecological niche equivalency test ,integrative taxonomy ,molecular phylogeny ,morphometry ,Nature and Landscape Conservation - Abstract
Using the genus Casearia, we assessed the status of nested singletons: individual specimens corresponding to accepted species but in molecular trees appearing nested within clades of closely related species. Normally, such cases would be left undecided, while on the other hand, timely taxonomic decisions are required. We argue that morphological, chorological, and ecological data can be informative to illuminate patterns of speciation. Their use can provide a first step in testing taxon concepts at species level. We focused on five cases of nested singletons in trees of the genus Casearia. We employed PCA and cluster analysis to assess phenotypic differentiation. Using geocoordinates, we calculated niche space differentiation based on 19 bioclim variables, by means of PCA and niche equivalency and similarity tests and generated dot maps. We found that the singletons were morphologically distinctive in two of the five cases (Casearia selloana and C. manausensis), relatively distinctive in two other cases (C. zizyphoides and C. mariquitensis), and partially overlapping in the last case (C. grandiflora). For two cases (C. mariquitensis and C. selloana), ecological niche space was broadly overlapping, in two cases it was found broadly nested (C. grandiflora and C. zizyphoides), and in one case narrowly nested (C. manausensis), but in no case niche differentiation was observed. Niche overlap, similarity and equivalency showed corresponding patterns. Given these data, one would interpret C. selloana and C. manausensis as presumably well-distinguished taxa, their narrow distribution ranges suggesting recently emerging lineages. The other three cases are not clearcut. Morphological data would suggest particularly C. grandiflora conspecific with C. arborea, but differences in the distribution are intriguing. Our approach would reject the notion of potential synonymy based on nested phylogenetic placement for at least two of the five cases. The other case also shows no complete lack of differentiation which would support synonymy.
- Published
- 2023
- Full Text
- View/download PDF
15. Genetische Grundlagen für den botanischen Artenschutz in Deutschland
- Author
-
Thomas Borsch and Elke Zippel
- Published
- 2021
- Full Text
- View/download PDF
16. World Flora Online: Placing taxonomists at the heart of a definitive and comprehensive global resource on the world's plants
- Author
-
Thomas Borsch, Eduardo Dalcin, Joseph T. Miller, Erik Smets, Fhatani Ranwashe, Maite Delmas, Dmitry V. Geltman, Sebsebe Demissew, Visotheary Ung, Peter W. Fritsch, Peter Wyse Jackson, William Ulate, Alan Paton, Mark F. Watson, Nelson Zamora, Chuck Miller, Rashad Salimov, Victoria Sosa, Wayt Thomas, Lauren Raz, Haining Qin, Walter G. Berendsohn, Eckhard Von Raab-Straube, Raoul Palese, Anne Fuchs, Marc S.M. Sosef, Alan Elliott, Thomas Haevermans, Barbara M. Thiers, John A. N. Parnell, Sandra Knapp, M. Marianne le Roux, Colin A. Pendry, Melissa Tulig, Adil Güner, James S. Miller, Pierre-André Loizeau, Institut de Systématique, Evolution, Biodiversité (ISYEB ), Muséum national d'Histoire naturelle (MNHN)-École pratique des hautes études (EPHE), and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)
- Subjects
0106 biological sciences ,CHECKLIST ,CONSERVATION ,Plant Science ,PARTNERSHIP ,CARYOPHYLLALES ,[SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy ,global species list ,010603 evolutionary biology ,01 natural sciences ,taxonomy ,03 medical and health sciences ,500 Naturwissenschaften und Mathematik::580 Pflanzen (Botanik)::580 Pflanzen (Botanik) ,vascular plants ,STRATEGY ,NETWORK ,PROGRESS ,Global Strategy for Plant Conservation ,ComputingMilieux_MISCELLANEOUS ,Ecology, Evolution, Behavior and Systematics ,030304 developmental biology ,Evolutionary Biology ,0303 health sciences ,Biodiversity assessment ,Science & Technology ,Plant Sciences ,SPECIES-DIVERSITY ,Environmental ethics ,15. Life on land ,biodiversity assessment ,REVISION ,science policy ,Geography ,VASCULAR PLANTS ,Science policy ,Life Sciences & Biomedicine - Abstract
It is time to synthesize the knowledge that has been generated through more than 260 years of botanical exploration, taxonomic and, more recently, phylogenetic research throughout the world. The adoption of an updated Global Strategy for Plant Conservation (GSPC) in 2011 provided the essential impetus for the development of the World Flora Online (WFO) project. The project represents an international, coordinated effort by the botanical community to achieve GSPC Target 1, an electronic Flora of all plants. It will be a first‐ever unique and authoritative global source of information on the world's plant diversity, compiled, curated, moderated and updated by an expert and specialist‐based community (Taxonomic Expert Networks – “TENs” – covering a taxonomic group such as family or order) and actively managed by those who have compiled and contributed the data it includes. Full credit and acknowledgement will be given to the original sources, allowing users to refer back to the primary data. A strength of the project is that it is led and endorsed by a global consortium of more than 40 leading botanical institutions worldwide. A first milestone for producing the World Flora Online is to be accomplished by the end of 2020, but the WFO Consortium is committed to continuing the WFO programme beyond 2020 when it will develop its full impact as the authoritative source of information on the world's plant biodiversity.
- Published
- 2020
- Full Text
- View/download PDF
17. Phylogenetic Relationships and Character Evolution in NeotropicalPhyllanthus(Phyllanthaceae), with a Focus on the Cuban and Caribbean Taxa
- Author
-
Banessa Falcón Hidalgo, Susy Fuentes Bazán, Thomas Borsch, and Rosalina Berazaín Iturralde
- Subjects
0106 biological sciences ,Phyllanthus ,Character evolution ,Phylogenetic tree ,Ecology ,Species diversity ,Pantropical ,Plant Science ,Biology ,Phyllanthaceae ,biology.organism_classification ,010603 evolutionary biology ,01 natural sciences ,Taxon ,Botany ,Molecular phylogenetics ,Ecology, Evolution, Behavior and Systematics - Abstract
Premise of research. The Caribbean is an important area of species diversity within the large pantropical genus Phyllanthus. With the goal of illuminating the evolutionary origins of Caribbean Phyl...
- Published
- 2020
- Full Text
- View/download PDF
18. Character evolution and biogeography of Casearia (Salicaceae): Evidence for the South American origin of a pantropical genus and for multiple migrations to the Caribbean islands
- Author
-
Astrid Mestier, Grischa Brokamp, Marcela Celis, Banessa Falcón‐Hidalgo, Jorge Gutiérrez, and Thomas Borsch
- Subjects
Neotropics ,500 Naturwissenschaften und Mathematik::580 Pflanzen (Botanik)::580 Pflanzen (Botanik) ,Neoptychocarpus ,Euceraea ,Plant Science ,ancestral area reconstruction ,ancestral character state reconstruction ,Ecology, Evolution, Behavior and Systematics ,Samydeae - Abstract
Casearia (Salicaceae) is a pantropical genus of circa 200 species, around half of which dwell in the Neotropics. Despite the availability of phylogenetic studies that suggest that Casearia sensu Sleumer is not monophyletic, a strong phylogenetic framework was still lacking for this genus. We tested the monophyly of Casearia and examined the relationships of its species to other taxa of the tribe Samydeae, including Laetia, Samyda and Zuelania, which recently have been sunk into Casearia, as well as Euceraea, Lunania, Neoptychocarpus, Ryania and Tetrathylacium. We further put a focus on the Neotropical taxa since Casearia and allies are speciose both on the Caribbean islands and adjacent mainlands, thus providing an interesting group to address the origin of the Caribbean and Cuban flora. Our phylogenetic analyses based on four combined rapidly evolving plastid regions (petD, rpl16, rps4-trnT-L-F, trnK-matK-psbA) as well as nuclear ITS revealed Casearia as monophyletic with high support, including not only the former members of Laetia, Samyda and Zuelania but also Euceraea and Neoptychocarpus. Casearia is constituted by several major clades, mostly being entirely Neotropical, one of which exclusively comprises species endemic to the Caribbean islands. Another clade, which includes all Palaeotropical species, is nested among Neotropical lineages. Our divergence date estimates using the plastid dataset and fossil calibration points in Salicaceae indicate that the Casearia crown group started to diversify during the late Eocene, approximately 39 Ma. The stem of the Old World clade diverged from Neotropical ancestors around 27 Ma, in the Oligocene. We used BayesTraits to reconstruct the evolution of seven characters commonly used to define Casearia and allied genera. We found morphological characters, such as branched inflorescences (fasciculate, glomerulous, cymose) or uniseriate stamen series, that work well to circumscribe the genus, whereas dioecy, which was used to diagnose Neoptychocarpus, or higher stamen numbers (>12), found in Laetia and Zuelania, are homoplastic in Salicaceae, the latter character derived within Casearia from ancestors with 7–12 stamens. Pellucid dots appear to have evolved earlier than the divergence of the Casearia clade in Samydeae, and were lost in Ryania and Tetrathylacium, and thus are no synapomorphy for Casearia. In order to establish a monophyletic genus concept for Casearia, we propose to also merge Euceraea and Neoptychocarpus. Our reconstruction of ancestral areas using BioGeoBears indicate that South America is the ancestral area of Casearia. From there, multiple migrations occurred to Mesoamerica and the Caribbean islands. The Caribbean that comprises nearly all Caribbean endemics started to diversify around 9.5 Ma. Our trees depict C. corymbosa, which exhibits significant infraspecific phylogenetic structure for the sampled Mexican and Colombian individuals, as the sister to the Caribbean clade. The other clade, with Cuban endemics (C. ternstroemioides) but also Mesoamerican and South American taxa, is not sufficiently resolved internally, to allow biogeographic conclusions. The Old World clade of Casearia provides another example for a late Laurasian migration starting in the Neotropics.
- Published
- 2022
19. Sample data processing in an additive and reproducible taxonomic workflow by using character data persistently linked to preserved individual specimens.
- Author
-
Norbert Kilian, Tilo Henning, Patrick Plitzner, Andreas Müller 0013, Anton Güntsch, Ben C. Stöver, Kai F. Müller, Walter G. Berendsohn, and Thomas Borsch
- Published
- 2015
- Full Text
- View/download PDF
20. Bioinformatic Workflows for Generating Complete Plastid Genome Sequences—An Example from Cabomba (Cabombaceae) in the Context of the Phylogenomic Analysis of the Water-Lily Clade
- Author
-
Michael Gruenstaeudl, Nico Gerschler, and Thomas Borsch
- Subjects
bioinformatics ,Cabomba ,genome assembly ,phylogenomics ,plastid genome ,standardization ,workflow ,Science - Abstract
The sequencing and comparison of plastid genomes are becoming a standard method in plant genomics, and many researchers are using this approach to infer plant phylogenetic relationships. Due to the widespread availability of next-generation sequencing, plastid genome sequences are being generated at breakneck pace. This trend towards massive sequencing of plastid genomes highlights the need for standardized bioinformatic workflows. In particular, documentation and dissemination of the details of genome assembly, annotation, alignment and phylogenetic tree inference are needed, as these processes are highly sensitive to the choice of software and the precise settings used. Here, we present the procedure and results of sequencing, assembling, annotating and quality-checking of three complete plastid genomes of the aquatic plant genus Cabomba as well as subsequent gene alignment and phylogenetic tree inference. We accompany our findings by a detailed description of the bioinformatic workflow employed. Importantly, we share a total of eleven software scripts for each of these bioinformatic processes, enabling other researchers to evaluate and replicate our analyses step by step. The results of our analyses illustrate that the plastid genomes of Cabomba are highly conserved in both structure and gene content.
- Published
- 2018
- Full Text
- View/download PDF
21. Software choice and depth of sequence coverage can impact plastid genome assembly – A case study in the narrow endemic Calligonum bakuense
- Author
-
Katja Reichel, Eka Giorgashvili, Thomas Borsch, Calvinna Caswara, Vuqar Kerimov, and Michael Gruenstaeudl
- Subjects
Phylogenetic tree ,Assembly software ,Contig ,Evolutionary biology ,Inverted repeat ,Lineage (evolution) ,Sequence assembly ,Biology ,Genome ,Sequence (medicine) - Abstract
Most plastid genome sequences are assembled from short-read whole-genome sequencing data, yet the impact that sequence coverage and the choice of assembly software can have on the accuracy of the resulting assemblies is poorly understood. In this study, we test the impact of both factors on plastid genome assembly in the threatened and rare endemic shrub Calligonum bakuense, which forms a distinct lineage in the genus Calligonum. We aim to characterize the differences across plastid genome assemblies generated by different assembly software tools and levels of sequence coverage and to determine if these differences are large enough to affect the phylogenetic position inferred for C. bakuense. Four assembly software tools (FastPlast, GetOrganelle, IOGA, and NOVOPlasty) and three levels of sequence coverage (original depth, 2,000x, and 500x) are compared in our analyses. The resulting assemblies are evaluated with regard to reproducibility, contig number, gene complement, inverted repeat length, and computation time; the impact of sequence differences on phylogenetic tree inference is also assessed. Our results show that software choice can have a considerable impact on the accuracy and reproducibility of plastid genome assembly and that GetOrganelle produced the most consistent assemblies for C. bakuense. Moreover, we found that a cap in sequence coverage can reduce both the sequence variability across assembly contigs and computation time. While no evidence was found that the sequence variability across assemblies was large enough to affect the phylogenetic position inferred for C. bakuense, differences among the assemblies may influence genotype recognition at the population level.
- Published
- 2021
- Full Text
- View/download PDF
22. Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity
- Author
-
Hilda Flores-Olvera, Silvia Zumaya, Thomas Borsch, and Kai F. Müller
- Subjects
0106 biological sciences ,0301 basic medicine ,Plant Science ,medicine.disease_cause ,010603 evolutionary biology ,01 natural sciences ,Magnoliopsida ,03 medical and health sciences ,Monophyly ,Genus ,Pollen ,medicine ,Plantae ,Ecology, Evolution, Behavior and Systematics ,Taxonomy ,Amaranthaceae ,biology ,Caryophyllales ,Iresine ,Biodiversity ,biology.organism_classification ,030104 developmental biology ,Evolutionary biology ,Molecular phylogenetics ,Taxonomy (biology) - Abstract
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, Kai Müller (2018): Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity. Taxon 67 (5): 944-976, DOI: https://doi.org/10.12705/675.7
- Published
- 2018
- Full Text
- View/download PDF
23. Software Choice and Sequencing Coverage Can Impact Plastid Genome Assembly-A Case Study in the Narrow Endemic
- Author
-
Eka, Giorgashvili, Katja, Reichel, Calvinna, Caswara, Vuqar, Kerimov, Thomas, Borsch, and Michael, Gruenstaeudl
- Abstract
Most plastid genome sequences are assembled from short-read whole-genome sequencing data, yet the impact that sequencing coverage and the choice of assembly software can have on the accuracy of the resulting assemblies is poorly understood. In this study, we test the impact of both factors on plastid genome assembly in the threatened and rare endemic shrub
- Published
- 2021
24. Multiple evolutionary origins of high mountain bellflowers with solitary flowers and calyx scales render a core Caucasian clade of the Scapiflorae group (Campanulaceae)
- Author
-
Marine Mosulishvili, Nana Silakadze, Thomas Borsch, Nadja Korotkova, and Norbert Kilian
- Subjects
0106 biological sciences ,0301 basic medicine ,Campanulaceae ,biology ,Campanula ,Range (biology) ,Zoology ,Plant Science ,biology.organism_classification ,010603 evolutionary biology ,01 natural sciences ,High mountain ,Calyx ,03 medical and health sciences ,030104 developmental biology ,Phylogenetics ,Clade ,Ecology, Evolution, Behavior and Systematics - Abstract
Campanula is one of the species-rich genera of the bellflower family (Campanulaceae), in a wider sense with ∼600 species, growing in a wide range of habitats in the northern hemisphere. The Caucasu...
- Published
- 2019
- Full Text
- View/download PDF
25. Innovative Instrumente und Methoden der Zulassung
- Author
-
Thomas Borsch and Frank Sonnenberg
- Subjects
Political science ,Humanities - Abstract
Das BSI hat im Rahmen seines gesetzlichen Auftrags die Verpflichtung, die IT-Sicherheit zu starken und aufrecht zu erhalten. Dazu gehort die Versorgung von Bund, Landern und geheimschutzbetreuter Wirtschaft mit VS-zugelassenen IT-Sicherheitslosungen. Die zunehmende Digitalisierung, immer kurzer werdende Innovationszyklen und sich stets verandernde Bedrohungslagen stellen fur die Sicherheit von VS-Systemen dabei eine grose Herausforderung dar. Daher gilt es, fruhzeitig innovative Methoden zu entwickeln, um den Bedarf IT-sicherheitsrelevanter Technologien zu erkennen, entsprechende Anforderungen zu definieren, diese in umsetzbare Produktentwicklungen zu uberfuhren und dem VS-Markt zeitnah als zugelassene VS-Losung bereitzustellen.
- Published
- 2019
- Full Text
- View/download PDF
26. VS-Zulassung
- Author
-
Martina Rohde, Thomas Borsch, and Frank Sonnenberg
- Published
- 2019
- Full Text
- View/download PDF
27. Out of Amazonia and Back Again: Historical Biogeography of the Species-Rich Neotropical Genus Philodendron (Araceae)
- Author
-
Thomas Borsch, Nils Köster, Marcela Celis, Dubán Canal, Thomas B. Croat, and Katy E. Jones
- Subjects
Philodendron ,Andean orogeny ,biology ,Ecology ,Biogeography ,05 social sciences ,Biodiversity ,Species diversity ,Plant Science ,Rainforest ,biology.organism_classification ,03 medical and health sciences ,0302 clinical medicine ,Geography ,Genus ,030220 oncology & carcinogenesis ,0502 economics and business ,Biological dispersal ,050203 business & management ,Ecology, Evolution, Behavior and Systematics - Abstract
The origin of Neotropical species diversity is strongly associated with the geological history of South America. Since the Miocene, a number of species radiations across different Neotropical lineages coincided with the rise of the Andes and the formation of the Isthmus of Panama. The species-rich genus Philodendron Schott (Araceae) is widely distributed across Neotropical rainforests, originating in the Late Oligocene and diversifying more intensely from the Miocene onward. It is likely that its diversification process and distribution patterns are associated with recent geological changes in the Americas. To test this hypothesis, we sampled the species diversity of Philodendron across its entire geographic range and used a combination of three non-coding plastid regions (petD, rpl16, and trnK/matK) to obtain a comprehensive time-calibrated phylogeny. We then inferred geographic range evolution and explored the impact of the Andean orogeny on speciation, extinction, and dispersal. The genus Philodendron originated ~29 million years ago (mya) and experienced the earliest diversification events ~25 mya in the Pan-Amazonian rainforests. From the Middle Miocene onward, multiple geographic range expansion events occurred from Amazonia to southeast Brazil and to the area which would become the Chocó and the northern Andes. From the Pliocene onward, Philodendron reached Central America and the Caribbean islands, and Andean lineages recolonized and diversified in Amazonia. In Philodendron, higher diversification rates are found in the adjacent lowland rainforests of the northern Andes compared with other regions in the Neotropics, demonstrating a potential indirect impact of the Andean uplift on species radiations in lowland regions.
- Published
- 2019
- Full Text
- View/download PDF
28. Phylogeny of the Eurasian genus Jurinea (Asteraceae: Cardueae): Support for a monophyletic genus concept and a first hypothesis on overall species relationships
- Author
-
Aglaia Szukala, Thomas Borsch, Michael Gruenstaeudl, Alexander N. Sennikov, Georgy A. Lazkov, Eckhard Von Raab-Straube, Eleonora Gabrielian, Svetlana A. Litvinskaya, and Nadja Korotkova
- Subjects
0106 biological sciences ,0303 health sciences ,Jurinea ,Plant Science ,Biology ,Asteraceae ,biology.organism_classification ,Plant taxonomy ,010603 evolutionary biology ,01 natural sciences ,03 medical and health sciences ,Monophyly ,Phylogenetics ,Genus ,Botany ,Ecology, Evolution, Behavior and Systematics ,030304 developmental biology - Published
- 2019
- Full Text
- View/download PDF
29. BIOLOGICAL DIVERSITY IN COLOMBIAN CARIBBEAN DRY FOREST REMNANTS IN ATLÁNTICO: LICHEN COMMUNITIES IN THE DISTRITO REGIONAL DE MANEJO INTEGRADO LURIZA AND THE RESERVA FORESTAL PROTECTORA EL PALOMAR
- Author
-
Oscar Rojas-Zamora, Beatriz Salgado-Negret, Thomas Borsch, Marcela Celis, María Cristina Martínez-Habibe, Robert Lücking, Bibiana Moncada, Grischa Brokamp, and Gina M. Rodríguez‐M.
- Subjects
0106 biological sciences ,Geography ,010607 zoology ,Dry forest ,Forestry ,General Agricultural and Biological Sciences ,Lichen ,010603 evolutionary biology ,01 natural sciences - Abstract
Presentamos un primer estudio de la diversidad y composicion de comunidades de liquenes en remanentes de bosque seco tropical (bs-T) en el departamento de Atlantico, Colombia. Se muestrearon liquenes en dos de las tres areas protegidas del departamento: Distrito de Manejo Integrado (DMI) Luriza y Reserva Forestal Protectora (RFP) El Palomar. El inventario registro 61 especies, incluyendo cuatro especies nuevas para la ciencia: Fissurina linoana Lucking, Moncada & G. Rodr. sp. nov., Graphis lurizana Lucking, Moncada & Celis sp. nov., Graphis mokanarum Lucking, Moncada & M.C. Martinez sp. nov. y Phaeographis galeanoae Lucking, Moncada & B. Salgado-N. sp. nov. Arthonia erupta y Coenogonium saepincola son nuevos registros para America del Sur, mientras que trece especies son reportadas por primera vez para Colombia. Unas 37 especies adicionales son nuevos reportes para Atlantico, incrementando el total de especies conocidas para el departamento de 27 a 84. Con 42 especies en Luriza y 31 en El Palomar, la riqueza de especies fue comparable con la de otros sitios de bs-T en el Neotropico. El traslape en la composicion de especies entre los dos sitios es bajo, con solamente doce (20 %) compartidas, indicando un alto nivel de heterogeneidad. Las afinidades biogeograficas son mayores con los bs-T de Centroamerica, lo que coincide con las de plantas lenosas. Estos resultados enfatizan la importancia de los remanentes de bs-T en Colombia para la conservacion de una biodiversidad poco conocida.
- Published
- 2019
- Full Text
- View/download PDF
30. Phylogeny of Campanuloideae (Campanulaceae) with emphasis on the utility of nuclear pentatricopeptide repeat (PPR) genes.
- Author
-
Andrew A Crowl, Evgeny Mavrodiev, Guilhem Mansion, Rosemarie Haberle, Annalaura Pistarino, Georgia Kamari, Dimitrios Phitos, Thomas Borsch, and Nico Cellinese
- Subjects
Medicine ,Science - Abstract
The Campanuloideae (Campanulaceae) are a highly diverse clade of angiosperms found mostly in the Northern Hemisphere, with the highest diversity in temperate areas of the Old World. Chloroplast markers have greatly improved our understanding of this clade but many relationships remain unclear primarily due to low levels of molecular evolution and recent and rapid divergence. Furthermore, focusing solely on maternally inherited markers such as those from the chloroplast genome may obscure processes such as hybridization. In this study we explore the phylogenetic utility of two low-copy nuclear loci from the pentatricopeptide repeat gene family (PPR). Rapidly evolving nuclear loci may provide increased phylogenetic resolution in clades containing recently diverged or closely related taxa. We present results based on both chloroplast and low-copy nuclear loci and discuss the utility of such markers to resolve evolutionary relationships and infer hybridization events within the Campanuloideae clade.The inclusion of low-copy nuclear genes into the analyses provides increased phylogenetic resolution in two species-rich clades containing recently diverged taxa. We also obtain support for the placement of two early diverging lineages (Jasione and Musschia-Gadellia clades) that have previously been unresolved. Furthermore, phylogenetic analyses of PPR loci revealed potential hybridization events for a number of taxa (e.g., Campanula pelviformis and Legousia species). These loci offer greater overall topological support than obtained with plastid DNA alone.This study represents the first inclusion of low-copy nuclear genes for phylogenetic reconstruction in Campanuloideae. The two PPR loci were easy to sequence, required no cloning, and the sequence alignments were straightforward across the entire Campanuloideae clade. Although potentially complicated by incomplete lineage sorting, these markers proved useful for understanding the processes of reticulate evolution and resolving relationships at a wide range of phylogenetic levels. Our results stress the importance of including multiple, independent loci in phylogenetic analyses.
- Published
- 2014
- Full Text
- View/download PDF
31. Variability among the most rapidly evolving plastid genomic regions is lineage-specific: implications of pairwise genome comparisons in Pyrus (Rosaceae) and other angiosperms for marker choice.
- Author
-
Nadja Korotkova, Lars Nauheimer, Hasmik Ter-Voskanyan, Martin Allgaier, and Thomas Borsch
- Subjects
Medicine ,Science - Abstract
Plastid genomes exhibit different levels of variability in their sequences, depending on the respective kinds of genomic regions. Genes are usually more conserved while noncoding introns and spacers evolve at a faster pace. While a set of about thirty maximum variable noncoding genomic regions has been suggested to provide universally promising phylogenetic markers throughout angiosperms, applications often require several regions to be sequenced for many individuals. Our project aims to illuminate evolutionary relationships and species-limits in the genus Pyrus (Rosaceae)-a typical case with very low genetic distances between taxa. In this study, we have sequenced the plastid genome of Pyrus spinosa and aligned it to the already available P. pyrifolia sequence. The overall p-distance of the two Pyrus genomes was 0.00145. The intergenic spacers between ndhC-trnV, trnR-atpA, ndhF-rpl32, psbM-trnD, and trnQ-rps16 were the most variable regions, also comprising the highest total numbers of substitutions, indels and inversions (potentially informative characters). Our comparative analysis of further plastid genome pairs with similar low p-distances from Oenothera (representing another rosid), Olea (asterids) and Cymbidium (monocots) showed in each case a different ranking of genomic regions in terms of variability and potentially informative characters. Only two intergenic spacers (ndhF-rpl32 and trnK-rps16) were consistently found among the 30 top-ranked regions. We have mapped the occurrence of substitutions and microstructural mutations in the four genome pairs. High AT content in specific sequence elements seems to foster frequent mutations. We conclude that the variability among the fastest evolving plastid genomic regions is lineage-specific and thus cannot be precisely predicted across angiosperms. The often lineage-specific occurrence of stem-loop elements in the sequences of introns and spacers also governs lineage-specific mutations. Sequencing whole plastid genomes to find markers for evolutionary analyses is therefore particularly useful when overall genetic distances are low.
- Published
- 2014
- Full Text
- View/download PDF
32. Plastid phylogenomics of the Gynoxoid group (Senecioneae, Asteraceae) highlights the importance of motif-based sequence alignment amid low genetic distances
- Author
-
Michael Gruenstaeudl, Thomas Borsch, Taylor S. Quedensley, and Belen Escobari
- Subjects
Lineage (evolution) ,sequence partitioning ,Sequence alignment ,Plant Science ,Biology ,Asteraceae ,Genome ,Phylogenetics ,500 Naturwissenschaften und Mathematik::580 Pflanzen (Botanik)::580 Pflanzen (Botanik) ,Polyphyly ,Phylogenomics ,manual sequence alignment ,phylogenetic inference ,Genetics ,plastid genome ,noncoding DNA ,Plastids ,Clade ,Ecology, Evolution, Behavior and Systematics ,Phylogeny ,Phylogenetic tree ,phylogenetic signal ,Reproducibility of Results ,homoplasy ,Sequence Analysis, DNA ,Senecioneae ,South America ,Evolutionary biology ,multiple sequence alignment ,chloroplast genome ,Sequence Alignment - Abstract
PREMISEThe genusGynoxysand relatives form a species-rich lineage of Andean shrubs and trees with low genetic distances within the sunflower subtribe Tussilaginineae. Previous molecular phylogenetic investigations of the Tussilaginineae have included few, if any, representatives of this Gynoxoid group or reconstructed ambiguous patterns of relationships for it.METHODSWe sequenced complete plastid genomes of 21 species of the Gynoxoid group and related Tussilaginineae and conducted detailed comparisons of the phylogenetic relationships supported by the gene, intron, and intergenic spacer partitions of these genomes. We also evaluated the impact of manual, motif-based adjustments of automatic DNA sequence alignments on phylogenetic tree inference.RESULTSOur results indicate that the inclusion of all plastid genome partitions is needed to infer fully resolved phylogenetic trees of the Gynoxoid group. Whole plastome-based tree inference suggests that the generaGynoxysandNordenstamiaare polyphyletic and form the core clade of the Gynoxoid group. This clade is sister to a clade ofAequatoriumandParagynoxysand also includes some but not all representatives ofParacalia.CONCLUSIONSThe concatenation and combined analysis of all plastid genome partitions and the construction of manually curated, motif-based DNA sequence alignments are found to be instrumental in the recovery of strongly supported relationships of the Gynoxoid group. We demonstrate that the correct assessment of homology in genome-level plastid sequence datasets is crucial for subsequent phylogeny reconstruction and that the manual post-processing of multiple sequence alignments improves the reliability of such reconstructions amid low genetic distances between taxa.
- Published
- 2021
33. It is not a disaster: molecular and morphologically based phylogenetic analysis of Rondeletieae and the Rondeletia complex (Cinchonoideae, Rubiaceae)
- Author
-
Thomas Borsch, Helga Ochoterena, Alejandro Torres-Montúfar, Jorge Gutierrez, and Susy Fuentes
- Subjects
0106 biological sciences ,Synapomorphy ,Paraphyly ,biology ,Plant Science ,biology.organism_classification ,010603 evolutionary biology ,01 natural sciences ,Cinchonoideae ,Monophyly ,Evolutionary biology ,Polyphyly ,Rondeletieae ,Blepharidium ,Rondeletia ,Ecology, Evolution, Behavior and Systematics ,010606 plant biology & botany - Abstract
The circumscription of Rondeletieae has changed considerably over time. Historically, 85 genera have been included, characterized by small trees, imbricate corolla aestivation and capsules. Molecular studies led to a narrower circumscription and stressed out that Rondeletieae is mainly an Antillean clade. As historically circumscribed, Rondeletieae is both polyphyletic (involving several tribes, including Condamineae, Sipaneeae, etc.) and paraphyletic with respect to Guettardeae. Uncertainties persist on the tribal circumscription, and its generic limits and relationships. We report results of phylogenetic analyses under parsimony, maximum likelihood and Bayesian analyses including 179 taxa, using concatenated datasets of three chloroplast DNA regions (petD, trnL–F and trnK–matK), their DNA microstructural characters as well as morphology. Our objectives are to: test the monophyly of Rondeletieae and evaluate phylogenetic relationships, evaluate potential characters for tribal and generic delimitation and propose a circumscription for Rondeletieae according to phylogenetic hypothesis using morphological characters. The tribes Guettardeae and Rondeletieae are strongly supported as sister: quincuncial aestivation and spathulate corolla lobes are proposed as a unique combination of characters supporting this relationship. We did not find synapomorphies for each tribe, but there is a set of character combinations that allows distinguishing both tribes that includes the corolla and pollen ornamentation as well as fruit and seed morphology. After evaluating other genera not included in the phylogenies, our proposal is that Rondeletieae contains approximately 120 species in 20 neotropical genera: Acrosynanthus, Acunaeanthus, Blepharidium, Donnellyanthus, Mazaea, Phyllomelia, Rachicallis, Roigella, Rondeletia, Rovaeanthus, Suberanthus, Tainus, plus one tentatively included and recently described (Jamaicanthus).
- Published
- 2020
- Full Text
- View/download PDF
34. A complete digitization of german herbaria is possible, sensible and should be started now
- Author
-
Anton Güntsch, Timm Karisch, Marco Schmidt, Holger Thüs, Albert-Dieter Stevens, Walter G. Berendsohn, Michaela Grein, Thomas Janßen, Karsten Wesche, Bank Beszteri, Stefan Dressler, Martin Schnittler, Philipp M. Schlüter, Tanja Weibulat, Dethardt Goetze, Andrey Yurkov, Josef Simmel, Gudrun Kadereit, Georg Zizka, Natalia Tkach, Hans-Joachim Esser, Martin Röser, Uta Grünert, Elke Seeber, Dagmar Triebel, Marcus A. Koch, Oliver Bossdorf, Peter Sack, Dietrich Ober, Matthias Schultz, Ursula Warnke, Jörn Hentschel, Peter Poschlod, Helmut Dalitz, Stefan Porembski, Christina Barilaro, Frank Blattner, Marc S. Appelhans, Markus Scholler, Eva Häffner, Frank Müller, Frank Hellwig, Jochen Müller, Norbert Jürgens, Elvira Hörandl, Andreas Franzke, Thomas Borsch, Rhinaixa Duque-Thüs, Christian Printzen, Michael Stiller, and Mike Thiv
- Subjects
0106 biological sciences ,0301 basic medicine ,Research Infrastructure ,Library science ,Conservation ,Semantics ,010603 evolutionary biology ,01 natural sciences ,German ,03 medical and health sciences ,Botanical Collections ,Artificial Intelligence ,Taxonomy (general) ,lcsh:Science ,Biodiversity Data ,Digitization ,Taxonomy ,Herbaria ,General Medicine ,language.human_language ,030104 developmental biology ,Geography ,Herbarium ,ddc:580 ,Res ,ddc:020 ,Biomonitoring ,language ,lcsh:Q ,Biologie - Abstract
Plants, fungi and algae are important components of global biodiversity and are fundamental to all ecosystems. They are the basis for human well-being, providing food, materials and medicines. Specimens of all three groups of organisms are accommodated in herbaria, where they are commonly referred to as botanical specimens. The large number of specimens in herbaria provides an ample, permanent and continuously improving knowledge base on these organisms and an indispensable source for the analysis of the distribution of species in space and time critical for current and future research relating to global biodiversity. In order to make full use of this resource, a research infrastructure has to be built that grants comprehensive and free access to the information in herbaria and botanical collections in general. This can be achieved through digitization of the botanical objects and associated data. The botanical research community can count on a long-standing tradition of collaboration among institutions and individuals. It agreed on data standards and standard services even before the advent of computerization and information networking, an example being the Index Herbariorum as a global registry of herbaria helping towards the unique identification of specimens cited in the literature. In the spirit of this collaborative history, 51 representatives from 30 institutions advocate to start the digitization of botanical collections with the overall wall-to-wall digitization of the flat objects stored in German herbaria. Germany has 70 herbaria holding almost 23 million specimens according to a national survey carried out in 2019. 87% of these specimens are not yet digitized. Experiences from other countries like France, the Netherlands, Finland, the US and Australia show that herbaria can be comprehensively and cost-efficiently digitized in a relatively short time due to established workflows and protocols for the high-throughput digitization of flat objects. Most of the herbaria are part of a university (34), fewer belong to municipal museums (10) or state museums (8), six herbaria belong to institutions also supported by federal funds such as Leibniz institutes, and four belong to non-governmental organizations. A common data infrastructure must therefore integrate different kinds of institutions. Making full use of the data gained by digitization requires the set-up of a digital infrastructure for storage, archiving, content indexing and networking as well as standardized access for the scientific use of digital objects. A standards-based portfolio of technical components has already been developed and successfully tested by the Biodiversity Informatics Community over the last two decades, comprising among others access protocols, collection databases, portals, tools for semantic enrichment and annotation, international networking, storage and archiving in accordance with international standards. This was achieved through the funding by national and international programs and initiatives, which also paved the road for the German contribution to the Global Biodiversity Information Facility (GBIF). Herbaria constitute a large part of the German botanical collections that also comprise living collections in botanical gardens and seed banks, DNA- and tissue samples, specimens preserved in fluids or on microscope slides and more. Once the herbaria are digitized, these resources can be integrated, adding to the value of the overall research infrastructure. The community has agreed on tasks that are shared between the herbaria, as the German GBIF model already successfully demonstrates. We have compiled nine scientific use cases of immediate societal relevance for an integrated infrastructure of botanical collections. They address accelerated biodiversity discovery and research, biomonitoring and conservation planning, biodiversity modelling, the generation of trait information, automated image recognition by artificial intelligence, automated pathogen detection, contextualization by interlinking objects, enabling provenance research, as well as education, outreach and citizen science. We propose to start this initiative now in order to valorize German botanical collections as a vital part of a worldwide biodiversity data pool.
- Published
- 2020
35. How to handle speciose clades? Mass taxon-sampling as a strategy towards illuminating the natural history of Campanula (Campanuloideae).
- Author
-
Guilhem Mansion, Gerald Parolly, Andrew A Crowl, Evgeny Mavrodiev, Nico Cellinese, Marine Oganesian, Katharina Fraunhofer, Georgia Kamari, Dimitrios Phitos, Rosemarie Haberle, Galip Akaydin, Nursel Ikinci, Thomas Raus, and Thomas Borsch
- Subjects
Medicine ,Science - Abstract
BACKGROUND: Speciose clades usually harbor species with a broad spectrum of adaptive strategies and complex distribution patterns, and thus constitute ideal systems to disentangle biotic and abiotic causes underlying species diversification. The delimitation of such study systems to test evolutionary hypotheses is difficult because they often rely on artificial genus concepts as starting points. One of the most prominent examples is the bellflower genus Campanula with some 420 species, but up to 600 species when including all lineages to which Campanula is paraphyletic. We generated a large alignment of petD group II intron sequences to include more than 70% of described species as a reference. By comparison with partial data sets we could then assess the impact of selective taxon sampling strategies on phylogenetic reconstruction and subsequent evolutionary conclusions. METHODOLOGY/PRINCIPAL FINDINGS: Phylogenetic analyses based on maximum parsimony (PAUP, PRAP), Bayesian inference (MrBayes), and maximum likelihood (RAxML) were first carried out on the large reference data set (D680). Parameters including tree topology, branch support, and age estimates, were then compared to those obtained from smaller data sets resulting from "classification-guided" (D088) and "phylogeny-guided sampling" (D101). Analyses of D088 failed to fully recover the phylogenetic diversity in Campanula, whereas D101 inferred significantly different branch support and age estimates. CONCLUSIONS/SIGNIFICANCE: A short genomic region with high phylogenetic utility allowed us to easily generate a comprehensive phylogenetic framework for the speciose Campanula clade. Our approach recovered 17 well-supported and circumscribed sub-lineages. Knowing these will be instrumental for developing more specific evolutionary hypotheses and guide future research, we highlight the predictive value of a mass taxon-sampling strategy as a first essential step towards illuminating the detailed evolutionary history of diverse clades.
- Published
- 2012
- Full Text
- View/download PDF
36. Simultaneous flowering of umbrella bamboo (Fargesia murieliae) at its native home in Central China
- Author
-
Li, Zhao-hua, Manfred, Denich, and Thomas, Borsch
- Published
- 2006
- Full Text
- View/download PDF
37. Evolutionary diversification of the African achyranthoid clade (Amaranthaceae) in the context of sterile flower evolution and epizoochory
- Author
-
Michael Gruenstaeudl, Vanessa Di Vincenzo, Peris Kamau, Thomas Borsch, Sebsebe Demissew, Melaku Wondafrash, and Lars Nauheimer
- Subjects
Gene Flow ,0106 biological sciences ,0301 basic medicine ,Plant Infertility ,Genetic Speciation ,Zoology ,Context (language use) ,Flowers ,Plant Science ,Biology ,010603 evolutionary biology ,01 natural sciences ,Gene flow ,03 medical and health sciences ,Phylogenetics ,Polyphyly ,Animals ,Clade ,Phylogeny ,Amaranthaceae ,Phylogenetic tree ,Plant Dispersal ,Bayes Theorem ,Original Articles ,Biological Evolution ,Phenotype ,030104 developmental biology ,Inflorescence ,Biological dispersal - Abstract
Background and Aims: Many African genera of the Amaranthaceae exhibit unique inflorescences that include sterile flowers modified to hooks or spines. Considering that the abundance of large terrestrial herbivores increased on the African continent with the expansion of grassland and savannah ecosystems, modified sterile flowers could have been an innovation that boosted the diversification of an African achyranthoid clade of Amaranthaceae, with large animals serving dispersal. Methods: We generated an extensively sampled phylogeny comprising 26 of the 31 achyranthoid genera as well as representatives of all other lineages of Amaranthaceae. Phylogenetic tree inference employed four genomic regions, using parsimony, likelihood and Bayesian inference methods. We estimated divergence times, evaluated trait-dependant changes and species diversification rates using state-dependent speciation and extinction models, and reconstructed ancestral character states for modified sterile flowers. Key Results: The achyranthoids were found to be a major clade of the Amaranthaceae, comprising mostly African members. Phylogenetic relationships within this clade were well resolved and supported two main subclades. Several genera were found to be polyphyletic. Our results indicate that the achyranthoids started to diversify ~28 million years ago, and that modified sterile flowers evolved multiple times. An asymmetry in transition rates towards the gain of sterile flowers was observed, whereas no trait-dependent increase in species diversification rates was detected. Bayesian rate heterogeneity analyses indicated that the achyranthoids diversified without significant rate shifts. Conclusions: The accumulation of modified sterile flowers within achyranthoids appears to result from the higher transition rates in favour of modified sterile flowers. Multiple gains suggest an adaptive value for this trait. However, epizoochory does not appear to fuel species diversification, possibly due to extensive gene flow through regularly migrating mammals, which limits the possibility of speciation by isolation.
- Published
- 2018
- Full Text
- View/download PDF
38. Effects of bamboo Fargesia murielae on plant diversity in fir forest on mountain Shennongjia
- Author
-
Li Zhaohua, Manfred Denich, and Thomas Borsch
- Published
- 2004
- Full Text
- View/download PDF
39. Iresine schaffneri S.Watson
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine schaffneri ,Iresine ,Biodiversity ,Plantae ,Caryophyllales ,Taxonomy - Abstract
Iresine schaffneri S.Watson in Proc. Amer. Acad. Arts 21: 437. 1886 – Lectotype (designated here): MEXICO. Chihuahua: Hacienda San Miguel, near Batopilas, Aug– Nov 1885, E. Palmer 12 (GH barcode 00898463! [image!]; isolectotypes: BM barcode BM000755852!, MEXU bar- code MEXU 00012733! [image!], NY barcodes 0 0 324537 [image!] & 01259988! [image!], PH barcode 0 0 0 16083 [image!], US barcodes 00102848! & 00731004! [image!], VT barcode UVMVT024390 [image!]). Note. – The other original material cited in the protologe is E. Palmer 111 (GH, US). It was collected in the same locality but specimens are not annotated as “n.sp.” as in the previously cited gathering. This also applies to further original material, collected near San Luis Potosi (Schaffner 876 [GH] and Parry & Palmer 791 [GH]). Taxonomic status: Species limits not yet studied in detail (B)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 970, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
40. Iresine flavescens Humb. & Bonpl. ex Willd
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine ,Iresine flavescens ,Biodiversity ,Plantae ,Caryophyllales ,Taxonomy - Abstract
Iresine flavescens Humb. & Bonpl. ex Willd., Sp. Pl. 4: 766. 1806 ≡ Alternanthera flavescens (Humb. & Bonpl. ex Willd.) Moq. in Candolle, Prodr. 13(2): 350. 1849 – Holotype: CUBA. Cayo Flamingo, 1 Mar 1801, A.J.A. Bonpland s.n. (P barcode P00136003 [image!]; isotype: P barcode P00136004 [image!]). = Iresine obtusifolia Kunth in Humboldt & al., Nov. Gen. Sp. 2: 198. 1817 – Type: CUBA. Cayo Bonito (type not located). = Iresine keyensis Millsp. in Publ. Field Columbian Mus., Bot. Ser. 2: 148. 1906 – Holotype: BAHAMAS. Whale Cay, 29 Jan 1905, W.I. Britton & Millspaugh 2179 (NY barcode 00073683! [image!]; isotype: F No. 173292!). Taxonomic status: Species limits not yet studied in detail (B)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 967, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
41. Iresine pedicellata Eliasson
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine ,Biodiversity ,Plantae ,Iresine pedicellata ,Caryophyllales ,Taxonomy - Abstract
Iresine pedicellata Eliasson in Harling & Andersson, Fl. Ecuador 28: 116. 1987 – Holotype: ECUADOR. Prov. Guayas: 3 km N of Julio Moreno, 200–300 m, 11 May 1985, G.W. Harling & L. Andersson 25011 (GB barcode GB- 0 0 47019 [image!]; isotype: QCA barcode 4743 [image!]). Taxonomic status: Species limits not yet studied in detail (B)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 969, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
42. Iresine hookeri Moq
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine ,Biodiversity ,Plantae ,Iresine hookeri ,Caryophyllales ,Taxonomy - Abstract
Iresine hookeri Moq. in Candolle, Prodr. 13(2): 344. 1849 – Holotype: MEXICO. Beechey s.n. (K barcode K000195153 [image!]). Taxonomic status: Species limits not yet studied in detail (B)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 968, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
43. Iresine ajuscana Suess. & Beyerle in Repert. Spec
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Iresine ajuscana ,Amaranthaceae ,Iresine ,Biodiversity ,Plantae ,Caryophyllales ,Taxonomy - Abstract
Iresine ajuscana Suess. & Beyerle in Repert. Spec. Nov. Regni Veg. 39: 10. 1935 ≡ Iresine ajuscana f. longiflora Suess. in Repert. Spec. Nov. Regni Veg. 39: 10. 1935 – Holotype for I. ajuscana and Lectotype for I. ajuscana f. longiflora (designated here): MEXICO. Staat Mexico: Thal von Ajusco, 1870, L. Hahn 35 (B barcode B 10 0177104! [image!]; isotype/isolectotype: fragment M barcode M-0098602 [image!]). = Iresine ajuscana f. minutiflora Suess. in Repert. Spec. Nov. Regni Veg. 39: 11. 1935 – Lectotype (designated here): MEXICO. Sallo de aqua, Dec 1905, C.A. Purpus 1807 (B barcode B 10 0715445! [image!]). = Iresine grandis var. glabrata Suess. in Mitt. Bot. Staatssamml. München 4: 108. 1952 – Holotype: MEXICO. Oaxaca: Ayutla, Cañon Rio Tlahuitoltepec, 19–27 Feb 1937, W.H. Camp 2720 (NY barcodes 01259979! [image!]; isotype: NY barcode 01259978! [image!]). = Iresine rubella Suess. in Mitt. Bot. Staatssamml. München 4: 109. 1952 – Holotype: MEXICO. Mexico-Valle, Monte de la Parada, 1856–1858, s.coll. s.n. (BM!). Note. – The original description of the species has no f. ajuscana but Suessenguth created f. longiflora for the type specimen of the species. With the lectotypification we want to make sure that f. longiflora refers to the same specimen as the autonym. Forma longiflora then falls into the synonymy of the autonym and the specimen Hahn 35 at B is taken as the holotype for the species name. Regarding to f. minutiflora four specimens are mentioned as original material. Only the two plants collected by Purpus (nos. 1803 and 1807) were annotated by Suessenguth in 1934 with “ Iresine ajuscana f. minutiflora Suess. & Bey.” and are staminate plants. Because of the strong link, one of them is designated as lectotype. The two specimens from Amecameca, Sacro Monte 2300 m, 3-3-1932, H. Fröderström & E. Hultén 1207 und 1208, both collected on the same day and representing staminate and pistillate plants, lack any sign of the name of the form and were identified one year later, in 1935, by Suessenguth already citing the publication in the Repertorium The specimen described by Suessenguth (1952) as I. rubella has relatively well developed pistillodes but these lack functional filiform stigmas and contrary to the view of this author is interpreted as a staminate individual. Taxonomic status: Not a monophylum as currently defined, requires further study (C)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on pages 963-964, DOI: 10.12705/675.7, http://zenodo.org/record/1488314, {"references":["Suessenguth, K. 1952. Species novae vel criticae (Amaranthaceae)."]}
- Published
- 2018
- Full Text
- View/download PDF
44. Iresine hartmanii Uline in Publ. Field Columbian Mus., Bot. Ser
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine ,Iresine hartmanii ,Biodiversity ,Plantae ,Caryophyllales ,Taxonomy - Abstract
Iresine hartmanii Uline in Publ. Field Columbian Mus., Bot. Ser. 1: 422, pl. 24. 1899 – Holotype: MEXICO. Sonora: Granados, alt. 3000 ft., 15 Nov 1890, C.V. Hartman 232 (US barcode 00102825!; isotypes: F No. 49593!, GH barcode 00037103! [image!], NY barcode 0 1259980 [image!]). = Iresine hartmanii var. gentryi Suess. in Mitt. Bot. Staatssamml. München 4: 108. 1952 – Lectotype (designated here): MEXICO. Sonora: Caramechim, Rio Mayo, 13 Dec 1934, Gentry 1190 (M barcode M-0098598 [image!]); isolectotypes: S Nos. S 07-12714 [image!] & S 07-12715 [image!]). Taxonomic status: Species limits not yet studied in detail (B)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 967, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
45. Iresine hebanthoides Suess
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine hebanthoides ,Iresine ,Biodiversity ,Plantae ,Caryophyllales ,Taxonomy - Abstract
Iresine hebanthoides Suess. in Repert. Spec. Nov. Regni Veg. 42: 58. 1937 – Holotype: MEXICO. Puebla: Huauchinango, Necaxa, Tepexinolo, 9 Feb 1932, Fröderström & E. Hultén 706 (S No. S 05-5666! [image!]; isotype: M barcode M-0098604! [image!]). Taxonomic status: Probably not a monophylum as currently defined, requires further study (C)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 967, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
46. Iresine nitens Standl
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine nitens ,Iresine ,Biodiversity ,Plantae ,Caryophyllales ,Taxonomy - Abstract
Iresine nitens Standl . in Contr. U.S. Natl. Herb. 18: 95. 1916 – Holotype: MEXICO. Puebla: Tehuacan, Sep 1911, C.A. Purpus 5667 (US barcode 00102837!; isotypes: BM barcode BM000755862!, F No. 299238!, GH barcode 00898461! [image!], M barcode M-0241856 [image!], NY barcode 0 1259984 [image!]). Taxonomic status: Species limits not yet studied in detail (B)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 969, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
47. Iresine arenaria Standl
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine arenaria ,Iresine ,Biodiversity ,Plantae ,Caryophyllales ,Taxonomy - Abstract
Iresine arenaria Standl. in Contr. U.S. Natl. Herb. 18: 93. 1916 – Holotype: MEXICO. Sinaloa: Topolobampo, 23 Mar 1910, J.N. Rose 13292, P.-C. Standley & P.-G. Russell (US barcode 00102816!; isotype: NY barcode 0 0 324524 [image!]). Taxonomic status: Species limits not yet studied in detail (B)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 965, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
48. Iresine discolor Greenm
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine discolor ,Iresine ,Biodiversity ,Plantae ,Caryophyllales ,Taxonomy - Abstract
Iresine discolor Greenm. in Proc. Amer. Acad. Arts 33: 477. 1898 – Lectotype (designated here): MEXICO. Oaxaca: Tomellin Canyon, altitude 1230 m, 4 Jul 1897, C.G. Pringle 6713 (MEXU barcode MEXU 00012727! [image!]; isolectotypes: AC barcode 0 0 319336 [image!], BM barcode BM000755858!, BR!, CM barcode 0 550 [image!], E barcode E00296906 [image!], F No. 50291!, GOET barcode GOET000087! [image!], JE barcode JE00026023 [image!], K barcode K000195150! [image!], KFTA barcode KFTA0000700 [image!], LECB barcode LECB0000031 [image!], LL barcode 0 0 375777 [image!], M barcode M-0098616! [image!], MEXU barcode MEXU 00012728! [image!], MIN barcode 1001498 [image!], MSC barcode MSC0092205 [image!], NDG barcode NDG15591 [image!], NY barcode 0 324525 [image!], PH barcode 0 0 0 16089 [image!], S No. S 07-12324! [image!], UC barcode UC 116378 [image!], VT barcode UVMVT024387 [image!]). Note. – There are several syntypes mentioned (G.C. Pringle & C. Conzatti under no. Conzatti 231, G.C. Pringle 6713 and G.C. Pringle 5787). Greenman (1898) commented on differing foliar characters in the latter number, so we selected the most widely distributed gathering as the lectotype from the first two numbers. Most of the specimens have a branch from a pistillate and a staminate individual mounted together on the same sheet, so we assume that they are from the same gathering. Taxonomic status: Probably a natural entity (monophylum) as currently defined (A)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 967, DOI: 10.12705/675.7, http://zenodo.org/record/1488314, {"references":["Greenman, J. M. 1898. Diagnoses of new and critical Mexican Phanerogams. Proc. Amer. Acad. Arts 33: 47 1 - 4 89."]}
- Published
- 2018
- Full Text
- View/download PDF
49. Iresine P.Browne, Civ. Nat. Hist
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine ,Biodiversity ,Plantae ,Caryophyllales ,Taxonomy - Abstract
Iresine P.Browne, Civ. Nat. Hist. Jamaica: 358. 1756, nom. cons. – Type: Iresine diffusa Humb. & Bonpl. ex Willd. = Rosea Mart., Nov. Gen. Sp. Pl. 2: 58. 1826, nom. illeg., non Rosea Fabr., Enum.: 147. 1759. = Woehleria Griseb. in Abh. Königl. Ges. Wiss. Göttingen 9: 11. 1861. = Dicaurus Hook.f. in Bentham & Hooker, Gen. Pl. 3: 42. 1880. = Irenella Suess. in Repert. Spec. Nov. Regni Veg. 35: 318. 1934., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on page 963, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
50. Iresine rzedowskii Zumaya, Flores Olv. & Borsch 2013
- Author
-
Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya, and Kai Müller
- Subjects
Magnoliopsida ,Amaranthaceae ,Iresine ,Biodiversity ,Plantae ,Iresine rzedowskii ,Caryophyllales ,Taxonomy - Abstract
Iresine rzedowskii Zumaya, Flores Olv. & Borsch in Syst. Bot. 38: 435. 2013 – Holotype: MEXICO. Michoacán: Mun. Quiroga, 2 km al NE de Capula rumbo a Quiroga, carretera 15 Morelia-Quiroga, 2204 m, 19°39′19.4″N, 101°21′22″W, 13 Feb 2005, T. Borsch, S. Zumaya & H. Flores 3788a (MEXU!; isotypes: B barcode B 10 0715453! [image!], ENCB!, IEB!, MEXU!, US!). = Iresine hartmanii var. gentryi f. palmeri Suess. in Mitt. Bot. Staatssamml. München 4: 108–109. 1952 – Lectotype (designated by Zumaya & al. in Syst. Bot. 38: 435. 2013): MEXICO. Durango: Tejamen, 21–27 Aug 1906, E. Palmer 64 (M barcode M-0098603 [image!]; isolectotypes: K!, NY barcode 0 0 324528 [image!], S No. S 07-12716 [image!], US!). Note. – A paratype of Iresine rzedowskii is T. Borsch, S. Zumaya & H. Flores 3788b (B barcode B 10 0 715453 [image!], ENCB!, IEB!, MEXU!, US!) to represent a pistillate individual from the same population. Taxonomic status: Probably a natural entity (monophylum) as currently defined (A)., Published as part of Thomas Borsch, Hilda Flores-Olvera, Silvia Zumaya & Kai Müller, 2018, Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity, pp. 944-976 in Taxon 67 (5) on pages 969-970, DOI: 10.12705/675.7, http://zenodo.org/record/1488314
- Published
- 2018
- Full Text
- View/download PDF
Catalog
Discovery Service for Jio Institute Digital Library
For full access to our library's resources, please sign in.